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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttcttccaatgctaacagtaaggatgaattcatgtctcttactgtcattggtatgcagtaaaggcataattgttgttgttgattgattggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTGATGCTCCGCCAACTGTGGCAGCTGTTAAGAACCCGACTCCGAAGATAGT

Basic information

species Vitis vinifera
transcript Vv14s0068g01030.t01
intron # 1
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110365749|gb|EC929174.1|EC929174
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|33406464|gb|CF212091.1|CF212091
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|77584238|gb|DV221183.1|DV221183
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTTTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71859710|gb|DT008765.1|DT008765
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTTTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|110390127|gb|EC955019.1|EC955019
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71856896|gb|DT005951.1|DT005951
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|110719132|gb|EE096757.1|EE096757
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCAG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|110370612|gb|EC930141.1|EC930141
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71854755|gb|DT003810.1|DT003810
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71854754|gb|DT003809.1|DT003809
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71858357|gb|DT007412.1|DT007412
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTTTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|33406378|gb|CF212005.1|CF212005
EST:     GATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: GATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71868404|gb|DT017459.1|DT017459
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71864325|gb|DT013380.1|DT013380
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|71865055|gb|DT014110.1|DT014110
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|26262188|gb|CA813251.1|CA813251
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|110401374|gb|EC967982.1|EC967982
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTTTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG
EST: gi|110400556|gb|EC967122.1|EC967122
EST:     TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAG                         GTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGTGGCGTAATTCCTG
genomic: TTTCTCCGATTCATTTTCGTTCGCTTCCCAATTTCATCTTCCTTTTAGAGgttagggttt ... ggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcattggtatgcagtaaaggcataattgttgttgttgattgattggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTGATGCTCCGCCAACTGTGGCAGCTGTTAAGAACCCGACTCCGAAGATAGT
                                     gattgat  putative branch site (score: 4)
                                               ctttct  putative PPT
                      ataattgtt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttcttccaatgctaacagtaaggatgaattcatgtctcttactgtcattggtatgcagtaaaggcataattgttgttgttgattgattggctttctagGTTTTGCTTCTGAGTCTCTCACCCCAAGGAATGAAAGCGGCGTAATTCCTGATGCTCCGCCAACTGTGGCAGCTGTTAAGAACCCGACTCCGAAGATAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - -ccaatgc
- - - - - - - -aacagtaa
- - - - - - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - - -ctgtcat
- - - - - - - - - - - - - - - - - - - - - - - - - - gtatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaggca